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        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2023-09-18, 06:55 based on data in: /home/sgurr/Airradians_lcWGS/snakemake_pipeline/trim_QC/April2023


        General Statistics

        Showing 390/390 rows and 4/5 columns.
        Sample Name% Dups% GCRead LengthM Seqs
        adapter_trim.F0-B10_R1_001
        37.6%
        35%
        140 bp
        17.5
        adapter_trim.F0-B10_R2_001
        36.1%
        36%
        140 bp
        17.3
        adapter_trim.F0-B11_R1_001
        34.7%
        35%
        139 bp
        16.0
        adapter_trim.F0-B11_R2_001
        33.9%
        35%
        139 bp
        15.9
        adapter_trim.F0-B13_R1_001
        35.8%
        35%
        135 bp
        9.6
        adapter_trim.F0-B13_R2_001
        35.3%
        35%
        135 bp
        9.6
        adapter_trim.F0-B14_R1_001
        35.9%
        35%
        137 bp
        20.3
        adapter_trim.F0-B14_R2_001
        35.4%
        35%
        137 bp
        20.2
        adapter_trim.F0-B15_R1_001
        33.9%
        35%
        135 bp
        20.4
        adapter_trim.F0-B15_R2_001
        34.0%
        35%
        135 bp
        20.2
        adapter_trim.F0-B16_R1_001
        34.1%
        35%
        140 bp
        24.1
        adapter_trim.F0-B16_R2_001
        33.2%
        35%
        139 bp
        23.9
        adapter_trim.F0-B17_R1_001
        30.9%
        35%
        141 bp
        9.1
        adapter_trim.F0-B17_R2_001
        30.0%
        36%
        141 bp
        9.0
        adapter_trim.F0-B18_R1_001
        41.7%
        35%
        133 bp
        31.5
        adapter_trim.F0-B18_R2_001
        41.2%
        35%
        133 bp
        31.3
        adapter_trim.F0-B19_R1_001
        32.7%
        35%
        140 bp
        13.4
        adapter_trim.F0-B19_R2_001
        31.8%
        35%
        140 bp
        13.2
        adapter_trim.F0-B1_R1_001
        36.6%
        36%
        137 bp
        22.6
        adapter_trim.F0-B1_R2_001
        36.4%
        36%
        136 bp
        22.4
        adapter_trim.F0-B20_R1_001
        35.9%
        35%
        140 bp
        15.9
        adapter_trim.F0-B20_R2_001
        35.0%
        35%
        140 bp
        15.8
        adapter_trim.F0-B21_R1_001
        35.1%
        35%
        138 bp
        13.3
        adapter_trim.F0-B21_R2_001
        34.0%
        35%
        138 bp
        13.1
        adapter_trim.F0-B23_R1_001
        31.6%
        36%
        141 bp
        6.9
        adapter_trim.F0-B23_R2_001
        30.5%
        36%
        140 bp
        6.8
        adapter_trim.F0-B24_R1_001
        29.7%
        35%
        141 bp
        4.7
        adapter_trim.F0-B24_R2_001
        28.6%
        35%
        141 bp
        4.6
        adapter_trim.F0-B25_R1_001
        38.4%
        35%
        133 bp
        18.3
        adapter_trim.F0-B25_R2_001
        38.0%
        35%
        133 bp
        18.1
        adapter_trim.F0-B27_R1_001
        35.2%
        35%
        135 bp
        14.6
        adapter_trim.F0-B27_R2_001
        34.7%
        35%
        135 bp
        14.4
        adapter_trim.F0-B2_R1_001
        39.9%
        35%
        131 bp
        28.1
        adapter_trim.F0-B2_R2_001
        39.7%
        35%
        130 bp
        28.0
        adapter_trim.F0-B3_R1_001
        39.3%
        35%
        137 bp
        25.9
        adapter_trim.F0-B3_R2_001
        37.8%
        35%
        136 bp
        25.6
        adapter_trim.F0-B4_R1_001
        38.3%
        35%
        137 bp
        22.4
        adapter_trim.F0-B4_R2_001
        37.4%
        35%
        137 bp
        22.3
        adapter_trim.F0-B5_R1_001
        37.9%
        35%
        135 bp
        26.0
        adapter_trim.F0-B5_R2_001
        37.1%
        35%
        135 bp
        25.8
        adapter_trim.F0-B6_R1_001
        33.3%
        35%
        141 bp
        15.5
        adapter_trim.F0-B6_R2_001
        31.7%
        36%
        140 bp
        15.2
        adapter_trim.F0-B7_R1_001
        37.6%
        35%
        136 bp
        18.9
        adapter_trim.F0-B7_R2_001
        37.4%
        35%
        135 bp
        18.8
        adapter_trim.F0-B9_R1_001
        35.5%
        35%
        138 bp
        22.5
        adapter_trim.F0-B9_R2_001
        35.1%
        35%
        138 bp
        22.4
        adapter_trim.F1-B1-pH75_R1_001
        34.9%
        35%
        148 bp
        21.6
        adapter_trim.F1-B1-pH75_R2_001
        30.4%
        35%
        148 bp
        21.2
        adapter_trim.F1-B1-pH8_R1_001
        32.5%
        35%
        148 bp
        10.5
        adapter_trim.F1-B1-pH8_R2_001
        31.0%
        35%
        147 bp
        10.4
        adapter_trim.F1-B10-pH8_R1_001
        29.9%
        35%
        147 bp
        12.0
        adapter_trim.F1-B10-pH8_R2_001
        28.0%
        35%
        147 bp
        11.8
        adapter_trim.F1-B11-pH75_R1_001
        31.0%
        35%
        147 bp
        8.0
        adapter_trim.F1-B11-pH75_R2_001
        29.9%
        35%
        147 bp
        7.9
        adapter_trim.F1-B11-pH8_R1_001
        32.4%
        35%
        147 bp
        11.3
        adapter_trim.F1-B11-pH8_R2_001
        31.2%
        35%
        147 bp
        11.2
        adapter_trim.F1-B12-pH75_R1_001
        31.6%
        35%
        148 bp
        9.1
        adapter_trim.F1-B12-pH75_R2_001
        30.5%
        35%
        147 bp
        9.0
        adapter_trim.F1-B12-pH8_R1_001
        30.8%
        35%
        148 bp
        11.0
        adapter_trim.F1-B12-pH8_R2_001
        29.2%
        35%
        147 bp
        10.8
        adapter_trim.F1-B13-pH75_R1_001
        38.6%
        35%
        147 bp
        29.6
        adapter_trim.F1-B13-pH75_R2_001
        35.6%
        35%
        147 bp
        29.1
        adapter_trim.F1-B13-pH8_R1_001
        30.1%
        35%
        148 bp
        9.0
        adapter_trim.F1-B13-pH8_R2_001
        28.1%
        35%
        147 bp
        8.8
        adapter_trim.F1-B14-pH75_R1_001
        43.6%
        37%
        120 bp
        12.0
        adapter_trim.F1-B14-pH75_R2_001
        44.3%
        37%
        120 bp
        12.0
        adapter_trim.F1-B14-pH8_R1_001
        31.7%
        35%
        147 bp
        11.1
        adapter_trim.F1-B14-pH8_R2_001
        30.2%
        35%
        147 bp
        10.9
        adapter_trim.F1-B15-pH75_R1_001
        36.7%
        35%
        136 bp
        17.5
        adapter_trim.F1-B15-pH75_R2_001
        36.4%
        36%
        136 bp
        17.4
        adapter_trim.F1-B15-pH8_R1_001
        30.3%
        35%
        147 bp
        8.6
        adapter_trim.F1-B15-pH8_R2_001
        29.4%
        35%
        147 bp
        8.5
        adapter_trim.F1-B16-pH75_R1_001
        35.4%
        35%
        147 bp
        17.8
        adapter_trim.F1-B16-pH75_R2_001
        33.8%
        35%
        147 bp
        17.6
        adapter_trim.F1-B16-pH8_R1_001
        29.8%
        35%
        147 bp
        10.3
        adapter_trim.F1-B16-pH8_R2_001
        29.3%
        35%
        146 bp
        10.2
        adapter_trim.F1-B17-pH75_R1_001
        33.1%
        35%
        148 bp
        19.8
        adapter_trim.F1-B17-pH75_R2_001
        31.4%
        35%
        147 bp
        19.6
        adapter_trim.F1-B18-pH75_R1_001
        51.4%
        35%
        148 bp
        230.3
        adapter_trim.F1-B18-pH75_R2_001
        49.4%
        35%
        147 bp
        227.2
        adapter_trim.F1-B18-pH8_R1_001
        31.7%
        35%
        146 bp
        12.8
        adapter_trim.F1-B18-pH8_R2_001
        31.1%
        35%
        146 bp
        12.7
        adapter_trim.F1-B2-pH8_R1_001
        50.0%
        28%
        150 bp
        0.0
        adapter_trim.F1-B2-pH8_R2_001
        50.0%
        24%
        150 bp
        0.0
        adapter_trim.F1-B20-pH75_R1_001
        34.2%
        35%
        146 bp
        16.0
        adapter_trim.F1-B20-pH75_R2_001
        33.0%
        35%
        146 bp
        15.8
        adapter_trim.F1-B20-pH8_R1_001
        30.0%
        35%
        147 bp
        9.1
        adapter_trim.F1-B20-pH8_R2_001
        28.5%
        35%
        146 bp
        9.0
        adapter_trim.F1-B21-pH75_R1_001
        30.1%
        35%
        148 bp
        10.1
        adapter_trim.F1-B21-pH75_R2_001
        28.6%
        35%
        148 bp
        10.0
        adapter_trim.F1-B21-pH8_R1_001
        29.9%
        35%
        147 bp
        10.9
        adapter_trim.F1-B21-pH8_R2_001
        28.9%
        35%
        147 bp
        10.8
        adapter_trim.F1-B22-pH75_R1_001
        27.6%
        35%
        148 bp
        0.0
        adapter_trim.F1-B22-pH75_R2_001
        26.1%
        35%
        147 bp
        0.0
        adapter_trim.F1-B23-pH75_R1_001
        30.9%
        35%
        147 bp
        11.6
        adapter_trim.F1-B23-pH75_R2_001
        29.7%
        35%
        147 bp
        11.5
        adapter_trim.F1-B24-pH8_R1_001
        32.4%
        35%
        147 bp
        10.8
        adapter_trim.F1-B24-pH8_R2_001
        31.7%
        35%
        147 bp
        10.7
        adapter_trim.F1-B25-pH8_R1_001
        31.8%
        35%
        147 bp
        8.7
        adapter_trim.F1-B25-pH8_R2_001
        30.8%
        35%
        146 bp
        8.6
        adapter_trim.F1-B3-pH75_R1_001
        31.9%
        35%
        148 bp
        12.9
        adapter_trim.F1-B3-pH75_R2_001
        30.2%
        35%
        148 bp
        12.7
        adapter_trim.F1-B3-pH8_R1_001
        30.3%
        35%
        147 bp
        11.3
        adapter_trim.F1-B3-pH8_R2_001
        28.6%
        35%
        147 bp
        11.1
        adapter_trim.F1-B30-pH75_R1_001
        25.8%
        34%
        147 bp
        0.0
        adapter_trim.F1-B30-pH75_R2_001
        25.1%
        34%
        147 bp
        0.0
        adapter_trim.F1-B4-pH75_R1_001
        30.3%
        35%
        148 bp
        7.6
        adapter_trim.F1-B4-pH75_R2_001
        27.8%
        35%
        148 bp
        7.4
        adapter_trim.F1-B4-pH8_R1_001
        29.6%
        35%
        148 bp
        10.4
        adapter_trim.F1-B4-pH8_R2_001
        16.7%
        36%
        147 bp
        9.6
        adapter_trim.F1-B5-pH8_R1_001
        31.4%
        35%
        147 bp
        17.9
        adapter_trim.F1-B5-pH8_R2_001
        29.5%
        35%
        147 bp
        17.6
        adapter_trim.F1-B6-pH75DUP_R1_001
        34.6%
        35%
        135 bp
        17.3
        adapter_trim.F1-B6-pH75DUP_R2_001
        34.1%
        35%
        135 bp
        17.2
        adapter_trim.F1-B6-pH75_R1_001
        39.3%
        36%
        118 bp
        30.6
        adapter_trim.F1-B6-pH75_R2_001
        39.7%
        36%
        117 bp
        30.5
        adapter_trim.F1-B6-pH8_R1_001
        29.6%
        35%
        148 bp
        6.6
        adapter_trim.F1-B6-pH8_R2_001
        28.5%
        35%
        147 bp
        6.5
        adapter_trim.F1-B7-pH75_R1_001
        30.7%
        35%
        148 bp
        8.4
        adapter_trim.F1-B7-pH75_R2_001
        29.3%
        35%
        148 bp
        8.3
        adapter_trim.F1-B7-pH8_R1_001
        32.6%
        35%
        148 bp
        13.2
        adapter_trim.F1-B7-pH8_R2_001
        30.4%
        35%
        148 bp
        13.0
        adapter_trim.F1-B8-pH75_R1_001
        31.5%
        35%
        146 bp
        8.4
        adapter_trim.F1-B8-pH75_R2_001
        30.5%
        35%
        146 bp
        8.3
        adapter_trim.F1-B8-pH8_R1_001
        29.6%
        35%
        147 bp
        11.6
        adapter_trim.F1-B8-pH8_R2_001
        27.8%
        35%
        146 bp
        11.4
        adapter_trim.F1-B9-pH75_R1_001
        31.8%
        35%
        146 bp
        13.1
        adapter_trim.F1-B9-pH75_R2_001
        31.5%
        35%
        146 bp
        13.0
        adapter_trim.F1-B9-pH8_R1_001
        31.9%
        35%
        148 bp
        12.4
        adapter_trim.F1-B9-pH8_R2_001
        30.4%
        35%
        148 bp
        12.2
        adapter_trim.F1-J105-pH8_R1_001
        37.9%
        35%
        134 bp
        16.3
        adapter_trim.F1-J105-pH8_R2_001
        37.4%
        35%
        134 bp
        16.2
        adapter_trim.F1-J106-pH8_R1_001
        36.5%
        35%
        135 bp
        15.9
        adapter_trim.F1-J106-pH8_R2_001
        37.0%
        35%
        135 bp
        15.8
        adapter_trim.F1-J110-pH8_R1_001
        41.6%
        36%
        133 bp
        23.1
        adapter_trim.F1-J110-pH8_R2_001
        42.6%
        36%
        133 bp
        23.0
        adapter_trim.F1-J111-pH8_R1_001
        35.8%
        35%
        138 bp
        15.5
        adapter_trim.F1-J111-pH8_R2_001
        34.5%
        36%
        138 bp
        15.4
        adapter_trim.F1-J112-pH8_R1_001
        37.6%
        36%
        137 bp
        13.9
        adapter_trim.F1-J112-pH8_R2_001
        36.6%
        36%
        136 bp
        13.8
        adapter_trim.F1-J113-pH8_R1_001
        38.3%
        35%
        136 bp
        21.4
        adapter_trim.F1-J113-pH8_R2_001
        37.9%
        36%
        136 bp
        21.2
        adapter_trim.F1-J114-pH8_R1_001
        33.9%
        35%
        141 bp
        11.2
        adapter_trim.F1-J114-pH8_R2_001
        33.5%
        35%
        140 bp
        11.1
        adapter_trim.F1-J12-pH8_R1_001
        38.5%
        36%
        135 bp
        10.8
        adapter_trim.F1-J12-pH8_R2_001
        38.3%
        36%
        135 bp
        10.7
        adapter_trim.F1-J13-pH8_R1_001
        35.1%
        35%
        138 bp
        10.2
        adapter_trim.F1-J13-pH8_R2_001
        34.4%
        35%
        137 bp
        10.2
        adapter_trim.F1-J14-pH8_R1_001
        33.3%
        35%
        138 bp
        9.6
        adapter_trim.F1-J14-pH8_R2_001
        32.9%
        36%
        138 bp
        9.5
        adapter_trim.F1-J157-pH8_R1_001
        35.7%
        35%
        137 bp
        12.2
        adapter_trim.F1-J157-pH8_R2_001
        34.9%
        35%
        137 bp
        12.1
        adapter_trim.F1-J158-pH8_R1_001
        35.1%
        35%
        135 bp
        18.1
        adapter_trim.F1-J158-pH8_R2_001
        34.8%
        35%
        135 bp
        18.0
        adapter_trim.F1-J16-pH8_R1_001
        37.9%
        35%
        135 bp
        12.3
        adapter_trim.F1-J16-pH8_R2_001
        37.5%
        36%
        135 bp
        12.2
        adapter_trim.F1-J160-pH8_R1_001
        40.1%
        35%
        131 bp
        20.4
        adapter_trim.F1-J160-pH8_R2_001
        40.3%
        35%
        131 bp
        20.3
        adapter_trim.F1-J161-pH8_R1_001
        36.5%
        35%
        139 bp
        14.7
        adapter_trim.F1-J161-pH8_R2_001
        35.6%
        36%
        139 bp
        14.6
        adapter_trim.F1-J162-pH8_R1_001
        36.0%
        35%
        134 bp
        13.6
        adapter_trim.F1-J162-pH8_R2_001
        35.3%
        35%
        133 bp
        13.5
        adapter_trim.F1-J163-pH8_R1_001
        40.4%
        36%
        134 bp
        23.5
        adapter_trim.F1-J163-pH8_R2_001
        40.3%
        36%
        133 bp
        23.4
        adapter_trim.F1-J164-pH8_R1_001
        37.6%
        35%
        135 bp
        14.0
        adapter_trim.F1-J164-pH8_R2_001
        37.0%
        36%
        135 bp
        13.9
        adapter_trim.F1-J17-pH8_R1_001
        41.1%
        36%
        133 bp
        23.1
        adapter_trim.F1-J17-pH8_R2_001
        40.8%
        36%
        132 bp
        22.9
        adapter_trim.F1-J18-pH8_R1_001
        39.2%
        36%
        137 bp
        17.7
        adapter_trim.F1-J18-pH8_R2_001
        38.9%
        36%
        137 bp
        17.5
        adapter_trim.F1-J205-pH75_R1_001
        32.4%
        35%
        135 bp
        8.4
        adapter_trim.F1-J205-pH75_R2_001
        31.7%
        35%
        135 bp
        8.3
        adapter_trim.F1-J206-pH75_R1_001
        35.7%
        36%
        134 bp
        14.2
        adapter_trim.F1-J206-pH75_R2_001
        35.7%
        36%
        134 bp
        14.1
        adapter_trim.F1-J207-pH75_R1_001
        37.3%
        36%
        130 bp
        21.3
        adapter_trim.F1-J207-pH75_R2_001
        37.4%
        36%
        130 bp
        21.2
        adapter_trim.F1-J209-pH75_R1_001
        39.9%
        35%
        141 bp
        21.3
        adapter_trim.F1-J209-pH75_R2_001
        40.5%
        35%
        140 bp
        21.2
        adapter_trim.F1-J210-pH75_R1_001
        38.9%
        35%
        134 bp
        16.4
        adapter_trim.F1-J210-pH75_R2_001
        39.0%
        36%
        134 bp
        16.3
        adapter_trim.F1-J211-pH75_R1_001
        29.0%
        36%
        139 bp
        0.5
        adapter_trim.F1-J211-pH75_R2_001
        28.2%
        36%
        139 bp
        0.5
        adapter_trim.F1-J212-pH75_R1_001
        33.3%
        35%
        138 bp
        10.3
        adapter_trim.F1-J212-pH75_R2_001
        33.5%
        35%
        138 bp
        10.3
        adapter_trim.F1-J256-pH75_R1_001
        27.8%
        36%
        134 bp
        0.0
        adapter_trim.F1-J256-pH75_R2_001
        27.8%
        35%
        134 bp
        0.0
        adapter_trim.F1-J258-pH75_R1_001
        42.6%
        36%
        135 bp
        28.4
        adapter_trim.F1-J258-pH75_R2_001
        41.0%
        36%
        135 bp
        28.1
        adapter_trim.F1-J261-pH75_R1_001
        38.5%
        36%
        135 bp
        17.2
        adapter_trim.F1-J261-pH75_R2_001
        37.9%
        36%
        135 bp
        17.1
        adapter_trim.F1-J262-pH75_R1_001
        37.4%
        36%
        134 bp
        14.3
        adapter_trim.F1-J262-pH75_R2_001
        37.1%
        36%
        134 bp
        14.3
        adapter_trim.F1-J263-pH75_R1_001
        38.1%
        36%
        134 bp
        19.2
        adapter_trim.F1-J263-pH75_R2_001
        37.8%
        36%
        133 bp
        19.1
        adapter_trim.F1-J264-pH75_R1_001
        34.4%
        35%
        137 bp
        15.3
        adapter_trim.F1-J264-pH75_R2_001
        34.0%
        35%
        137 bp
        15.2
        adapter_trim.F1-J306-pH75_R1_001
        41.8%
        35%
        136 bp
        39.3
        adapter_trim.F1-J306-pH75_R2_001
        41.1%
        35%
        136 bp
        39.0
        adapter_trim.F1-J307-pH75_R1_001
        38.5%
        35%
        135 bp
        25.8
        adapter_trim.F1-J307-pH75_R2_001
        38.1%
        35%
        135 bp
        25.6
        adapter_trim.F1-J308-pH75_R1_001
        37.9%
        35%
        145 bp
        20.6
        adapter_trim.F1-J308-pH75_R2_001
        36.2%
        35%
        145 bp
        20.3
        adapter_trim.F1-J311-pH75_R1_001
        33.1%
        35%
        139 bp
        9.0
        adapter_trim.F1-J311-pH75_R2_001
        32.6%
        35%
        138 bp
        8.9
        adapter_trim.F1-J312-pH75_R1_001
        36.3%
        36%
        132 bp
        8.5
        adapter_trim.F1-J312-pH75_R2_001
        35.9%
        36%
        132 bp
        8.4
        adapter_trim.F1-J313-pH75_R1_001
        36.0%
        35%
        138 bp
        12.4
        adapter_trim.F1-J313-pH75_R2_001
        35.5%
        36%
        138 bp
        12.3
        adapter_trim.F1-J314-pH75_R1_001
        36.5%
        35%
        136 bp
        13.2
        adapter_trim.F1-J314-pH75_R2_001
        36.1%
        35%
        136 bp
        13.1
        adapter_trim.F1-J354-pH75_R1_001
        33.9%
        36%
        126 bp
        0.0
        adapter_trim.F1-J354-pH75_R2_001
        34.0%
        36%
        126 bp
        0.0
        adapter_trim.F1-J355-pH75_R1_001
        35.1%
        36%
        130 bp
        5.0
        adapter_trim.F1-J355-pH75_R2_001
        35.4%
        36%
        130 bp
        5.0
        adapter_trim.F1-J361-pH75_R1_001
        38.9%
        35%
        137 bp
        12.4
        adapter_trim.F1-J361-pH75_R2_001
        39.1%
        36%
        136 bp
        12.3
        adapter_trim.F1-J362-pH75_R1_001
        42.8%
        37%
        133 bp
        21.5
        adapter_trim.F1-J362-pH75_R2_001
        42.7%
        37%
        132 bp
        21.4
        adapter_trim.F1-J363-pH75_R1_001
        37.0%
        36%
        136 bp
        11.4
        adapter_trim.F1-J363-pH75_R2_001
        36.7%
        36%
        135 bp
        11.4
        adapter_trim.F1-J364-pH75_R1_001
        33.7%
        35%
        140 bp
        11.4
        adapter_trim.F1-J364-pH75_R2_001
        32.8%
        35%
        140 bp
        11.3
        adapter_trim.F1-J372-pH75_R1_001
        37.8%
        36%
        136 bp
        13.0
        adapter_trim.F1-J372-pH75_R2_001
        37.4%
        36%
        136 bp
        12.9
        adapter_trim.F1-J6-pH8_R1_001
        39.8%
        36%
        135 bp
        18.1
        adapter_trim.F1-J6-pH8_R2_001
        39.7%
        36%
        135 bp
        18.1
        adapter_trim.F1-J65-pH8_R1_001
        38.2%
        36%
        136 bp
        23.2
        adapter_trim.F1-J65-pH8_R2_001
        37.6%
        36%
        136 bp
        23.0
        adapter_trim.F1-J66-pH8_R1_001
        38.4%
        36%
        133 bp
        19.5
        adapter_trim.F1-J66-pH8_R2_001
        38.4%
        36%
        132 bp
        19.4
        adapter_trim.F1-J67-pH8_R1_001
        37.8%
        35%
        135 bp
        16.9
        adapter_trim.F1-J67-pH8_R2_001
        37.3%
        36%
        134 bp
        16.8
        adapter_trim.F1-J68-pH8_R1_001
        38.1%
        35%
        136 bp
        16.2
        adapter_trim.F1-J68-pH8_R2_001
        38.1%
        36%
        136 bp
        16.1
        adapter_trim.F1-J69-pH8_R1_001
        35.7%
        35%
        139 bp
        12.5
        adapter_trim.F1-J69-pH8_R2_001
        35.3%
        35%
        139 bp
        12.4
        adapter_trim.F1-J70-pH8_R1_001
        41.2%
        36%
        135 bp
        15.9
        adapter_trim.F1-J70-pH8_R2_001
        40.8%
        36%
        135 bp
        15.8
        adapter_trim.F1-J71-pH8_R1_001
        32.9%
        35%
        138 bp
        4.6
        adapter_trim.F1-J71-pH8_R2_001
        32.4%
        36%
        137 bp
        4.5
        adapter_trim.F2-J102-pH8_R1_001
        23.6%
        35%
        146 bp
        6.3
        adapter_trim.F2-J102-pH8_R2_001
        20.1%
        36%
        146 bp
        6.0
        adapter_trim.F2-J104-pH8_R1_001
        41.8%
        37%
        143 bp
        9.5
        adapter_trim.F2-J104-pH8_R2_001
        37.9%
        37%
        143 bp
        9.3
        adapter_trim.F2-J105-pH8_R1_001
        39.9%
        37%
        143 bp
        7.2
        adapter_trim.F2-J105-pH8_R2_001
        36.7%
        37%
        143 bp
        7.0
        adapter_trim.F2-J107-pH8_R1_001
        37.2%
        36%
        145 bp
        11.4
        adapter_trim.F2-J107-pH8_R2_001
        36.2%
        36%
        145 bp
        11.3
        adapter_trim.F2-J108-pH8_R1_001
        37.1%
        35%
        142 bp
        9.3
        adapter_trim.F2-J108-pH8_R2_001
        36.8%
        35%
        142 bp
        9.3
        adapter_trim.F2-J109-pH8_R1_001
        42.8%
        36%
        132 bp
        4.3
        adapter_trim.F2-J109-pH8_R2_001
        42.8%
        36%
        131 bp
        4.3
        adapter_trim.F2-J122-pH8_R1_001
        36.1%
        35%
        146 bp
        16.5
        adapter_trim.F2-J122-pH8_R2_001
        34.2%
        35%
        145 bp
        16.2
        adapter_trim.F2-J123-pH8_R1_001
        32.3%
        35%
        148 bp
        19.0
        adapter_trim.F2-J123-pH8_R2_001
        30.0%
        35%
        147 bp
        18.7
        adapter_trim.F2-J125-pH8_R1_001
        39.4%
        36%
        134 bp
        12.9
        adapter_trim.F2-J125-pH8_R2_001
        39.3%
        36%
        134 bp
        12.9
        adapter_trim.F2-J126-pH8_R1_001
        32.2%
        35%
        147 bp
        17.7
        adapter_trim.F2-J126-pH8_R2_001
        30.8%
        35%
        146 bp
        17.5
        adapter_trim.F2-J127-pH8_R1_001
        31.3%
        35%
        147 bp
        16.2
        adapter_trim.F2-J127-pH8_R2_001
        29.6%
        35%
        147 bp
        16.0
        adapter_trim.F2-J141-pH8_R1_001
        33.5%
        35%
        136 bp
        17.1
        adapter_trim.F2-J141-pH8_R2_001
        33.1%
        35%
        136 bp
        17.0
        adapter_trim.F2-J142-pH8_R1_001
        36.1%
        35%
        147 bp
        10.5
        adapter_trim.F2-J142-pH8_R2_001
        34.6%
        35%
        146 bp
        10.3
        adapter_trim.F2-J143-pH8_R1_001
        44.1%
        37%
        136 bp
        13.8
        adapter_trim.F2-J143-pH8_R2_001
        43.3%
        37%
        135 bp
        13.7
        adapter_trim.F2-J144-pH8_R1_001
        24.8%
        35%
        142 bp
        6.9
        adapter_trim.F2-J144-pH8_R2_001
        22.8%
        36%
        141 bp
        6.7
        adapter_trim.F2-J145-pH8_R1_001
        35.7%
        35%
        144 bp
        17.5
        adapter_trim.F2-J145-pH8_R2_001
        34.9%
        35%
        143 bp
        17.4
        adapter_trim.F2-J146-pH8_R1_001
        35.3%
        35%
        143 bp
        12.6
        adapter_trim.F2-J146-pH8_R2_001
        34.7%
        35%
        143 bp
        12.5
        adapter_trim.F2-J147-pH8_R1_001
        40.3%
        36%
        131 bp
        12.5
        adapter_trim.F2-J147-pH8_R2_001
        40.2%
        36%
        131 bp
        12.5
        adapter_trim.F2-J161-pH7_R1_001
        53.2%
        38%
        130 bp
        8.6
        adapter_trim.F2-J161-pH7_R2_001
        52.1%
        38%
        130 bp
        8.5
        adapter_trim.F2-J162-pH7_R1_001
        57.1%
        39%
        102 bp
        31.7
        adapter_trim.F2-J162-pH7_R2_001
        58.1%
        39%
        102 bp
        31.6
        adapter_trim.F2-J163-pH7_R1_001
        25.5%
        35%
        142 bp
        7.4
        adapter_trim.F2-J163-pH7_R2_001
        23.5%
        35%
        142 bp
        7.2
        adapter_trim.F2-J164-pH7_R1_001
        38.7%
        37%
        128 bp
        5.5
        adapter_trim.F2-J164-pH7_R2_001
        39.4%
        37%
        127 bp
        5.4
        adapter_trim.F2-J165-pH7_R1_001
        37.1%
        36%
        141 bp
        15.4
        adapter_trim.F2-J165-pH7_R2_001
        36.1%
        36%
        140 bp
        15.3
        adapter_trim.F2-J166-pH7_R1_001
        36.4%
        35%
        138 bp
        19.2
        adapter_trim.F2-J166-pH7_R2_001
        36.0%
        35%
        138 bp
        19.1
        adapter_trim.F2-J181-pH7_R1_001
        59.8%
        38%
        111 bp
        34.6
        adapter_trim.F2-J181-pH7_R2_001
        60.8%
        38%
        111 bp
        34.5
        adapter_trim.F2-J182-pH7_R1_001
        24.2%
        35%
        144 bp
        5.1
        adapter_trim.F2-J182-pH7_R2_001
        22.7%
        35%
        143 bp
        5.0
        adapter_trim.F2-J184-pH7_R1_001
        42.5%
        36%
        138 bp
        23.6
        adapter_trim.F2-J184-pH7_R2_001
        42.5%
        36%
        138 bp
        23.5
        adapter_trim.F2-J185-pH7_R1_001
        39.9%
        37%
        120 bp
        7.0
        adapter_trim.F2-J185-pH7_R2_001
        40.4%
        37%
        120 bp
        7.0
        adapter_trim.F2-J186-pH7_R1_001
        37.7%
        36%
        135 bp
        8.2
        adapter_trim.F2-J186-pH7_R2_001
        37.0%
        36%
        135 bp
        8.2
        adapter_trim.F2-J187-pH7_R1_001
        37.0%
        35%
        139 bp
        10.3
        adapter_trim.F2-J187-pH7_R2_001
        36.2%
        36%
        139 bp
        10.2
        adapter_trim.F2-J2-pH75_R1_001
        26.4%
        35%
        147 bp
        11.4
        adapter_trim.F2-J2-pH75_R2_001
        24.5%
        35%
        147 bp
        11.2
        adapter_trim.F2-J201-pH7_R1_001
        43.1%
        36%
        132 bp
        14.9
        adapter_trim.F2-J201-pH7_R2_001
        43.0%
        36%
        132 bp
        14.9
        adapter_trim.F2-J202-pH7_R1_001
        35.5%
        35%
        145 bp
        11.7
        adapter_trim.F2-J202-pH7_R2_001
        34.1%
        35%
        145 bp
        11.6
        adapter_trim.F2-J203-pH7_R1_001
        44.5%
        37%
        104 bp
        19.0
        adapter_trim.F2-J203-pH7_R2_001
        45.4%
        37%
        104 bp
        19.0
        adapter_trim.F2-J204-pH7_R1_001
        38.5%
        36%
        132 bp
        8.8
        adapter_trim.F2-J204-pH7_R2_001
        38.4%
        36%
        132 bp
        8.8
        adapter_trim.F2-J205-pH7_R1_001
        39.1%
        37%
        138 bp
        6.9
        adapter_trim.F2-J205-pH7_R2_001
        38.7%
        37%
        137 bp
        6.9
        adapter_trim.F2-J206-pH7_R1_001
        38.7%
        36%
        137 bp
        8.7
        adapter_trim.F2-J206-pH7_R2_001
        38.6%
        36%
        137 bp
        8.6
        adapter_trim.F2-J22-pH75_R1_001
        17.1%
        34%
        148 bp
        1.8
        adapter_trim.F2-J22-pH75_R2_001
        14.5%
        35%
        147 bp
        1.7
        adapter_trim.F2-J221-pH7_R1_001
        43.5%
        35%
        143 bp
        63.1
        adapter_trim.F2-J221-pH7_R2_001
        41.6%
        35%
        142 bp
        62.5
        adapter_trim.F2-J222-pH7_R1_001
        44.0%
        33%
        133 bp
        0.0
        adapter_trim.F2-J222-pH7_R2_001
        44.0%
        32%
        131 bp
        0.0
        adapter_trim.F2-J223-pH7_R1_001
        30.2%
        35%
        140 bp
        9.8
        adapter_trim.F2-J223-pH7_R2_001
        28.8%
        35%
        140 bp
        9.6
        adapter_trim.F2-J224-pH7_R1_001
        29.7%
        35%
        147 bp
        9.8
        adapter_trim.F2-J224-pH7_R2_001
        27.5%
        35%
        146 bp
        9.7
        adapter_trim.F2-J225-pH7_R1_001
        39.6%
        37%
        131 bp
        13.8
        adapter_trim.F2-J225-pH7_R2_001
        39.7%
        37%
        130 bp
        13.8
        adapter_trim.F2-J227-pH7_R1_001
        42.2%
        37%
        135 bp
        10.6
        adapter_trim.F2-J227-pH7_R2_001
        41.9%
        37%
        134 bp
        10.5
        adapter_trim.F2-J228-pH7_R1_001
        37.9%
        36%
        126 bp
        5.0
        adapter_trim.F2-J228-pH7_R2_001
        38.5%
        36%
        126 bp
        4.9
        adapter_trim.F2-J23-pH75_R1_001
        31.7%
        36%
        146 bp
        5.1
        adapter_trim.F2-J23-pH75_R2_001
        29.7%
        36%
        145 bp
        5.0
        adapter_trim.F2-J24-pH75_R1_001
        37.2%
        35%
        147 bp
        16.1
        adapter_trim.F2-J24-pH75_R2_001
        35.8%
        36%
        147 bp
        15.9
        adapter_trim.F2-J25-pH75_R1_001
        24.5%
        35%
        148 bp
        6.2
        adapter_trim.F2-J25-pH75_R2_001
        23.3%
        35%
        147 bp
        6.1
        adapter_trim.F2-J26-pH75_R1_001
        39.0%
        36%
        146 bp
        14.4
        adapter_trim.F2-J26-pH75_R2_001
        37.6%
        36%
        146 bp
        14.2
        adapter_trim.F2-J27-pH75_R1_001
        26.0%
        35%
        146 bp
        5.1
        adapter_trim.F2-J27-pH75_R2_001
        24.4%
        35%
        145 bp
        5.0
        adapter_trim.F2-J3-pH75_R1_001
        35.8%
        35%
        142 bp
        13.8
        adapter_trim.F2-J3-pH75_R2_001
        34.6%
        35%
        142 bp
        13.7
        adapter_trim.F2-J41-pH75_R1_001
        43.8%
        37%
        144 bp
        4.9
        adapter_trim.F2-J41-pH75_R2_001
        40.7%
        37%
        144 bp
        4.8
        adapter_trim.F2-J42-pH75_R1_001
        25.8%
        35%
        142 bp
        6.0
        adapter_trim.F2-J42-pH75_R2_001
        24.1%
        35%
        141 bp
        5.8
        adapter_trim.F2-J43-pH75_R1_001
        42.0%
        38%
        118 bp
        19.7
        adapter_trim.F2-J43-pH75_R2_001
        42.1%
        38%
        118 bp
        19.6
        adapter_trim.F2-J45-pH75_R1_001
        36.4%
        36%
        132 bp
        2.3
        adapter_trim.F2-J45-pH75_R2_001
        36.5%
        36%
        132 bp
        2.3
        adapter_trim.F2-J46-pH75_R1_001
        29.6%
        35%
        142 bp
        11.2
        adapter_trim.F2-J46-pH75_R2_001
        28.5%
        35%
        141 bp
        11.0
        adapter_trim.F2-J47-pH75_R1_001
        40.2%
        37%
        131 bp
        3.6
        adapter_trim.F2-J47-pH75_R2_001
        40.6%
        37%
        130 bp
        3.5
        adapter_trim.F2-J5-pH75_R1_001
        38.1%
        35%
        146 bp
        16.4
        adapter_trim.F2-J5-pH75_R2_001
        36.8%
        35%
        146 bp
        16.3
        adapter_trim.F2-J6-pH75_R1_001
        42.9%
        38%
        141 bp
        5.4
        adapter_trim.F2-J6-pH75_R2_001
        42.8%
        38%
        141 bp
        5.3
        adapter_trim.F2-J61-pH75_R1_001
        22.6%
        35%
        146 bp
        11.4
        adapter_trim.F2-J61-pH75_R2_001
        21.0%
        35%
        145 bp
        11.1
        adapter_trim.F2-J62-pH75_R1_001
        38.9%
        37%
        146 bp
        8.9
        adapter_trim.F2-J62-pH75_R2_001
        37.3%
        37%
        146 bp
        8.8
        adapter_trim.F2-J63-pH75_R1_001
        44.2%
        36%
        136 bp
        7.0
        adapter_trim.F2-J63-pH75_R2_001
        44.3%
        36%
        135 bp
        7.0
        adapter_trim.F2-J64-pH75_R1_001
        42.7%
        37%
        146 bp
        14.1
        adapter_trim.F2-J64-pH75_R2_001
        41.7%
        37%
        145 bp
        14.0
        adapter_trim.F2-J65-pH75_R1_001
        29.2%
        35%
        147 bp
        17.6
        adapter_trim.F2-J65-pH75_R2_001
        27.9%
        35%
        146 bp
        17.4
        adapter_trim.F2-J66-pH75_R1_001
        39.0%
        36%
        137 bp
        6.1
        adapter_trim.F2-J66-pH75_R2_001
        38.8%
        36%
        137 bp
        6.1
        adapter_trim.F2-J67-pH75_R1_001
        42.7%
        38%
        107 bp
        1.9
        adapter_trim.F2-J67-pH75_R2_001
        44.2%
        38%
        106 bp
        1.9
        adapter_trim.F2-J8-pH75_R1_001
        31.2%
        35%
        131 bp
        20.9
        adapter_trim.F2-J8-pH75_R2_001
        31.2%
        36%
        130 bp
        20.8
        adapter_trim.F2-J82-pH8_R1_001
        43.4%
        37%
        140 bp
        6.3
        adapter_trim.F2-J82-pH8_R2_001
        40.3%
        37%
        140 bp
        6.1
        adapter_trim.F2-J83-pH8_R1_001
        34.7%
        36%
        141 bp
        8.9
        adapter_trim.F2-J83-pH8_R2_001
        32.6%
        36%
        141 bp
        8.7
        adapter_trim.F2-J84-pH8_R1_001
        36.4%
        35%
        144 bp
        13.3
        adapter_trim.F2-J84-pH8_R2_001
        35.5%
        35%
        143 bp
        13.2
        adapter_trim.F2-J85-pH8_R1_001
        43.0%
        36%
        137 bp
        6.4
        adapter_trim.F2-J85-pH8_R2_001
        42.4%
        36%
        137 bp
        6.4
        adapter_trim.F2-J86-pH8_R1_001
        33.9%
        35%
        147 bp
        12.9
        adapter_trim.F2-J86-pH8_R2_001
        32.0%
        35%
        147 bp
        12.7
        adapter_trim.F2-J88-pH8_R1_001
        44.2%
        37%
        113 bp
        42.1
        adapter_trim.F2-J88-pH8_R2_001
        45.7%
        37%
        113 bp
        42.0
        adapter_trim.F2-J89-pH8_R1_001
        41.5%
        36%
        117 bp
        32.3
        adapter_trim.F2-J89-pH8_R2_001
        42.4%
        36%
        117 bp
        32.3
        adapter_trim.F2-J9-pH75_R1_001
        37.7%
        35%
        132 bp
        25.4
        adapter_trim.F2-J9-pH75_R2_001
        37.5%
        36%
        132 bp
        25.3

        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Length Distribution

        The distribution of fragment sizes (read lengths) found. See the FastQC help

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (eg PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Overrepresented sequences

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as over represented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all of the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

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        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

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